Molecular dynamics simulations of large macromolecular complexes JR Perilla, BC Goh, CK Cassidy, B Liu, RC Bernardi, T Rudack, H Yu, ... Current opinion in structural biology 31, 64-74, 2015 | 448 | 2015 |
CryoEM and computer simulations reveal a novel kinase conformational switch in bacterial chemotaxis signaling CK Cassidy, BA Himes, FJ Alvarez, J Ma, G Zhao, JR Perilla, K Schulten, ... Elife 4, e08419, 2015 | 120 | 2015 |
PyLipID: A python package for analysis of protein–lipid interactions from molecular dynamics simulations W Song, RA Corey, TB Ansell, CK Cassidy, MR Horrell, AL Duncan, ... Journal of chemical theory and computation 18 (2), 1188-1201, 2022 | 88 | 2022 |
Computational methodologies for real-space structural refinement of large macromolecular complexes BC Goh, JA Hadden, RC Bernardi, A Singharoy, R McGreevy, T Rudack, ... Annual Review of Biophysics 45, 253-278, 2016 | 83 | 2016 |
Dynamics of an LPS translocon induced by substrate and an antimicrobial peptide F Fiorentino, JB Sauer, X Qiu, RA Corey, CK Cassidy, B Mynors-Wallis, ... Nature chemical biology 17 (2), 187-195, 2021 | 52 | 2021 |
Complete structure of the chemosensory array core signalling unit in an E. coli minicell strain A Burt, CK Cassidy, P Ames, M Bacia-Verloop, M Baulard, K Huard, ... Nature communications 11 (1), 743, 2020 | 50 | 2020 |
Structure and dynamics of the E. coli chemotaxis core signaling complex by cryo-electron tomography and molecular simulations CK Cassidy, BA Himes, D Sun, J Ma, G Zhao, JS Parkinson, PJ Stansfeld, ... Communications biology 3 (1), 24, 2020 | 49 | 2020 |
CheY's acetylation sites responsible for generating clockwise flagellar rotation in Escherichia coli M Fraiberg, O Afanzar, CK Cassidy, A Gabashvili, K Schulten, Y Levin, ... Molecular microbiology 95 (2), 231-244, 2015 | 41 | 2015 |
In Situ Conformational Changes of the Escherichia coli Serine Chemoreceptor in Different Signaling States W Yang, CK Cassidy, P Ames, CA Diebolder, K Schulten, ... MBio 10 (4), e00973-19, 2019 | 36* | 2019 |
The unconventional cytoplasmic sensing mechanism for ethanol chemotaxis in Bacillus subtilis P Tohidifar, GA Bodhankar, S Pei, CK Cassidy, HE Walukiewicz, ... MBio 11 (5), 10.1128/mbio. 02177-20, 2020 | 26* | 2020 |
Structure and activity of particulate methane monooxygenase arrays in methanotrophs Y Zhu, CW Koo, CK Cassidy, MC Spink, T Ni, LC Zanetti-Domingues, ... Nature communications 13 (1), 5221, 2022 | 21 | 2022 |
CryoEM-based hybrid modeling approaches for structure determination CK Cassidy, BA Himes, Z Luthey-Schulten, P Zhang Current opinion in microbiology 43, 14-23, 2018 | 21 | 2018 |
High-resolution reconstruction of a Jumbo-bacteriophage infecting capsulated bacteria using hyperbranched tail fibers R Ouyang, AR Costa, CK Cassidy, A Otwinowska, VCJ Williams, A Latka, ... Nature Communications 13 (1), 7241, 2022 | 16 | 2022 |
Structural basis for SMAC-mediated antagonism of caspase inhibition by the giant ubiquitin ligase BIRC6 L Dietz, CJ Ellison, C Riechmann, CK Cassidy, FD Felfoldi, ... Science 379 (6637), 1112-1117, 2023 | 14 | 2023 |
Hexameric rings of the scaffolding protein CheW enhance response sensitivity and cooperativity in Escherichia coli chemoreceptor arrays GE Piñas, MD DeSantis, CK Cassidy, JS Parkinson Science signaling 15 (718), eabj1737, 2022 | 11 | 2022 |
A bacterial inflammation sensor regulates c-di-GMP signaling, adhesion, and biofilm formation A Perkins, DA Tudorica, RD Teixeira, T Schirmer, L Zumwalt, OM Ogba, ... MBio 12 (3), 10.1128/mbio. 00173-21, 2021 | 10 | 2021 |
Alternative Architecture of the E. coli Chemosensory Array A Burt, CK Cassidy, PJ Stansfeld, I Gutsche Biomolecules 11 (4), 495, 2021 | 8 | 2021 |
LipIDens: simulation assisted interpretation of lipid densities in cryo-EM structures of membrane proteins TB Ansell, W Song, CE Coupland, L Carrique, RA Corey, AL Duncan, ... Nature Communications 14 (1), 7774, 2023 | 7 | 2023 |
Mechanisms of E. coli chemotaxis signaling pathways visualized using cryoET and computational approaches K Hadjidemetriou, S Kaur, CK Cassidy, P Zhang Biochemical Society Transactions 50 (6), 1595-1605, 2022 | 7 | 2022 |
GPU-accelerated molecular dynamics clustering analysis with OpenACC JE Stone, JR Perilla, CK Cassidy, K Schulten Parallel Programming with OpenACC, 215-240, 2017 | 7 | 2017 |